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F4F695 (F4F695_VERMA) Unreviewed, UniProtKB/TrEMBL

Last modified April 3, 2013. Version 13. Feed History...

Clusters with 100%, 90%, 50% identity | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Probable DNA ligase HAMAP-Rule MF_00407
EC=6.5.1.1 HAMAP-Rule MF_00407
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP] HAMAP-Rule MF_00407
Gene names
Name:ligB EMBL AEB46847.1
Synonyms:lig HAMAP-Rule MF_00407
Ordered Locus Names:VAB18032_28881 EMBL AEB46847.1
OrganismVerrucosispora maris (strain AB-18-032) [Complete proteome] [HAMAP]
Taxonomic identifier263358 [NCBI]
Taxonomic lineageBacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Micromonosporineae › Micromonosporaceae › Verrucosispora ›

Protein attributes

Sequence length538 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair By similarity. HAMAP-Rule MF_00407

Catalytic activity

ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m). RuleBase RU000617 HAMAP-Rule MF_00407

Cofactor

Divalent metal cations By similarity. HAMAP-Rule MF_00407

Sequence similarities

Belongs to the ATP-dependent DNA ligase family. HAMAP-Rule MF_00407 RuleBase RU004196

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Sites

Active site2111N6-AMP-lysine intermediate By similarity HAMAP-Rule MF_00407
Binding site2091ATP By similarity HAMAP-Rule MF_00407
Binding site2161ATP By similarity HAMAP-Rule MF_00407
Binding site2311ATP By similarity HAMAP-Rule MF_00407
Binding site2601ATP By similarity HAMAP-Rule MF_00407
Binding site3221ATP By similarity HAMAP-Rule MF_00407
Binding site3941ATP By similarity HAMAP-Rule MF_00407
Binding site4001ATP By similarity HAMAP-Rule MF_00407

Sequences

Sequence LengthMass (Da)Tools
F4F695 [UniParc].

Last modified June 28, 2011. Version 1.
Checksum: 6E3443C358FB2881

FASTA53856,037
        10         20         30         40         50         60 
MRFLDLAATS AAVAATSGRR AKVELLAEAL RRLDPVEIAA GAGWLAGELR QRQTGVGWAG 

        70         80         90        100        110        120 
LRDLPPPAAE PTLTVGAVDA AIDAIAAVHG SGSQARRRAL VHSLYAAATA DEQRLLTGLF 

       130        140        150        160        170        180 
LGELRHGAQA GLLADAIARA AGVPVAAVRR ALLLAGDLRE VAVAALAGGA AALAGFGLRV 

       190        200        210        220        230        240 
GRPLAPMLAQ SASSVDEALA ATGTPAVVDV KLDGIRIQVH RSGSDIAVFT RSLDDITARV 

       250        260        270        280        290        300 
PEVVAAVRAL PARELVLDGE AIGLDETGRP LPFQQTSSAA ARRGGSAGAR STGGPTAAAP 

       310        320        330        340        350        360 
VAPAVRAAAA STGTTVLTPY FFDLLHLDGT DLIDAPGRER WAVLRGTVDA GLLVGRMEVD 

       370        380        390        400        410        420 
EPQRAGEAFA AALDAGQEGV VVKAPDAPYE AGRRGAAWIK VKPRHTLDLV VLAVEWGSGR 

       430        440        450        460        470        480 
RTGWLSNLHL GARDPRTGEF VMLGKTFKGL TDDLLRWQTE RFLGLAVERG DWVVRVRPEQ 

       490        500        510        520        530 
VVEIAFDGVQ TSSRYPGGVA LRFARVVRYR EDKSAAEADT IDTVRAIHAG RPPAAPSP

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References

[1]"Genome sequence of the abyssomicin- and proximicin-producing marine actinomycete Verrucosispora maris AB-18-032."
Roh H., Uguru G.C., Ko H.J., Kim S., Kim B.Y., Goodfellow M., Bull A.T., Kim K.H., Bibb M.J., Choi I.G., Stach J.E.
J. Bacteriol. 193:3391-3392(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: AB-18-032 EMBL AEB46847.1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CP002638 Genomic DNA. Translation: AEB46847.1.
RefSeqYP_004407447.1. NC_015434.1.

3D structure databases

ModBaseSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAEB46847; AEB46847; VAB18032_28881.
GeneID10453626.
KEGGvma:VAB18032_28881.
PATRIC54478133. VBIVerMar92278_4913.

Organism-specific databases

CMRSearch...

Phylogenomic databases

KOK01971.

Family and domain databases

Gene3D1.10.3260.10. 1 hit.
2.40.50.140. 2 hits.
HAMAPMF_00407. DNA_ligase.
InterProIPR022865. DNA_ligae_ATP-dep_bac/arc.
IPR000977. DNA_ligase_ATP-dep.
IPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR012308. DNA_ligase_ATP-dep_N.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view]
SUPFAMSSF50249. Nucleic_acid_OB. 1 hit.
SSF117018. SSF117018. 1 hit.
TIGRFAMsTIGR00574. dnl1. 1 hit.
PROSITEPS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameF4F695_VERMA
AccessionPrimary (citable) accession number: F4F695
Entry history
Integrated into UniProtKB/TrEMBL: June 28, 2011
Last sequence update: June 28, 2011
Last modified: April 3, 2013
This is version 13 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)
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